Locus 2440

Sequence ID X_DroMel_CAF1
Location 6,542,465 – 6,542,555
Length 90
Max. P 0.976603
window3963

overview

Window 3

Location 6,542,465 – 6,542,555
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 93.55
Mean single sequence MFE -30.26
Consensus MFE -27.74
Energy contribution -27.42
Covariance contribution -0.32
Combinations/Pair 1.09
Mean z-score -1.60
Structure conservation index 0.92
SVM decision value 1.77
SVM RNA-class probability 0.976603
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6542465 90 + 22224390
CAGCUUUUAGGGCUGCUCGGCCAAGCUGCUCUGCCGGAGAGCCAGCUCCAAAUGGGCGUAUUUGCCUGAAUCCAGGCUAACCGAUUAUAC
(((((.....))))).((((((((((((((((.....)))).))))).....)))........(((((....)))))...))))...... ( -30.60)
>DroSec_CAF1 26755 90 + 1
CAGCUUUUCCUGCUGCUCGGCCUAGCUGCUCUGCCGGAGAGCCAGCUCCAAAUGGGCGUCUUUGCCUAAAUCCAGGCUAACCGAUUAUAC
((((.......))))...((((((((((((((.....)))).))))).....((((((....)))))).....)))))............ ( -29.50)
>DroSim_CAF1 19212 90 + 1
CAGCUUUUCCUGCUGCUCGGCCUAGCUGCUCUGCCGGAGAGCCAGCUCCAAAUGGGCGUCUUUGCCUUAAUCCAGGCUAACCGAUUAUAC
((((.......))))...((((((((((((((.....)))).)))))......(((((....)))))......)))))............ ( -27.70)
>DroEre_CAF1 15317 89 + 1
CAGCUUUUCGUGCUGCUCGGCCCAGCUGCUCUGCCGGAGAGCCAGCUCCAAAUGGGCGUCUUUGCCUGAUGCCAGGCCAACCGA-UAUAC
((((.......))))...((((.(((((((((.....)))).))))).......((((((.......)))))).))))......-..... ( -33.10)
>DroYak_CAF1 14905 89 + 1
CAGCUUUUCCUGCUGCUCGGCCUGGCUGCUCUGCCGGAGAGCCAGCUCCAAAUGGGCGUCUUUGCCUUAGUCCAGGCUAACCGA-UAUAC
((((.......))))...((((((((((.......((((......))))....(((((....)))))))).)))))))......-..... ( -30.40)
>consensus
CAGCUUUUCCUGCUGCUCGGCCUAGCUGCUCUGCCGGAGAGCCAGCUCCAAAUGGGCGUCUUUGCCUGAAUCCAGGCUAACCGAUUAUAC
((((.......))))...((((.(((((((((.....)))).)))))......(((((....))))).......))))............ (-27.74 = -27.42 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:27 2006